Browsing by Subject "Microbial community structure"

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Community Structure and Activity of Nitrate-Reducing Microorganisms in Soils under Global Climate Change
(2006) Deiglmayr, Kathrin; Kandeler, Ellen
Since the beginning of the Industrial Revolution, atmospheric carbon dioxide concentrations have been steadily increasing and, thus, contributed to a warming of the climate and altered biogeochemical cycles. To study the response of soil microorganisms to altered environmental conditions under global climate change, the nitrate-reducing community was regarded as a model community in the present thesis. This functional group, which performs the first step in the denitrification pathway, was selected because it is phylogenetically very diverse. In particular rising levels of atmospheric carbon dioxide as the most important catalyst of temperature rise and the retreat of glaciers in the Alps as one of the most evident consequences of climate change were investigated. The behaviour of nitrate reducers was investigated in a biphasic approach: (i) at the level of its enzyme activity of the nitrate reductase and (ii) at the level of community structure, which was characterised by RFLP (Restriction Fragment Length Polymorphism)-fingerprints using the functional gene narG. The effect of elevated atmospheric carbon dioxide concentrations on nitrate-reducing micro-organisms was studied in the Swiss FACE (Free Air Carbon dioxide Enrichment) experiment including the rhizosphere of two functional plant types (Lolium perenne and Trifolium repens), two N fertilisation levels and two sampling dates (June and October 2002). Whereas in June no significant treatment effect was observed, the nitrate reductase activity proved to be significantly reduced under elevated atmospheric carbon dioxide at the autumn sampling date. Simultaneously, elevated enzyme activities were recorded under Trifolium repens and high N fertilisation pointing to a control of nitrate reductase activity by nitrate availability at the time of sampling. The community structure of nitrate reducers, however, showed a different response pattern with sampling date and the strongly varying pH of the different experimental plots constituting the main driving factors. With respect to the three experimental factors atmospheric carbon dioxide, plant type and N fertilisation the composition of the nitrate reducers revealed a high stability. The microbial succession of nitrate-reducing microorganisms was studied in the rhizosphere of Poa alpina across the glacier foreland of the Rotmoosferner/Oetz valley. Sampling was performed in August and at the end of the short period of vegetation in September. The nitrate reductase activity increased significantly with progressing successional age, whereas organic carbon together with nitrate concentrations in the soils explained the major part of this effect. The microbial community of nitrate reducers revealed a significant shift across the glacier foreland, with pH and organic carbon representing the most important environmental factors inducing this shift. A detailed analysis of the clone libraries that were constructed for the youngest and the oldest site in the glacier foreland pointed to the tendency of lower diversity in the late succession compared to the young succession. Possibly an increasing selective pressure due to higher densities of microorganisms and, hence, a higher competition for limited resources contributed to the decline in diversity. In conclusion, the functional group of nitrate reducers responded to changing environmental conditions under global climate change particularly through altered enzyme activities. The amount and the direction of this response depended strongly on the nitrate availability and the organic carbon content in soils. The community structure of nitrate-reducing microorganisms, however, proved to be resilient towards short-term substrate fluctuations. This indicates that the genetic pool of this group of soil microorganisms possesses a high functional stability characterized by a relatively persistent composition and an independent modulation of enzyme activity.
Function and composition of the soil microbial community in calcareous grassland exposed to elevated atmospheric carbon dioxide
(2003) Ebersberger, Diana; Kandeler, Ellen
Terrestrial ecosystems generally respond to rising atmospheric carbon dioxide (CO2) concentrations with increased net primary productivity and increased water use efficiency. This may change the amount and quality of organic substances entering the soil and fuelling microbial metabolism. Soil microorganisms and their activity might also be affected by increased soil moisture at elevated CO2. This thesis was designed to analyse the response of the soil microbial community in a species-rich calcareous grassland in the Swiss Jura Mountains, which had been exposed to ambient and elevated CO2 concentrations (365 and 600 ppm) for six growing seasons. In the first study, laboratory incubation experiments were conducted to explore the relationship between litter quality under elevated carbon dioxide and enzymes involved in carbon cycling. Naturally senescent, mixed litter from the long-term field experiment was incubated with soil material for 10, 30 and 60 days. Soil samples were then obtained close to the litter layer using a microtome cutting device. Litter and soil samples were analysed for invertase and xylanase activity. The lower litter quality produced under elevated CO2, i.e. wider C/N ratio, yielded lower invertase and xylanase activities of litter. Litter addition stimulated activities in adjacent soil. Invertase activities of adjacent soil were not affected by litter quality, while soil xylanase activity was higher in soil compartments adjacent to litter from elevated CO2 plots. The reduced enzyme activities of litter produced under elevated CO2 can slow decomposition, at least during the initial stages. Since the effects of litter quality on enzyme activities in adjacent soil were small, we conclude that CO2-induced belowground C-inputs (e.g. increased root mass) and altered moisture conditions are more important controls of enzyme activities than altered litter quality. In the second study, functional diversity of the soil microbial community was assessed by analysing N-mineralisation and activities of enzymes of the C-, N-, P- and S-cycle of soil samples taken in spring and summer 1999, in the 6th season of CO2 exposure. In spring, N-mineralisation increased significantly by 30% at elevated CO2, while there was no significant difference between treatments in summer. The response of soil enzymes to CO2 enrichment was also more pronounced in spring, when alkaline phosphatase and urease activities were increased most strongly, by 32% and 21%, respectively. In summer, activity differences between CO2 treatments were greatest in the case of urease and protease (+21% and +17% at elevated CO2). The significant stimulation of N-mineralisation and enzyme activities at elevated CO2 was probably caused by higher soil moisture and/or increased root biomass. In the third study, soil microbial community structure of soil samples taken in spring and summer 1999 was analysed by means of PLFA profiles and 16S rDNA fingerprints obtained by PCR-DGGE. PLFA profiles were not affected by elevated CO2. Ordination analysis of DNA fingerprints revealed a significant relation between CO2 enrichment and variation in DNA fingerprints. This variation must be attributed to low intensity bands because dominant bands did not differ between treatments. Diversity of the bacterial community (number of bands in DNA fingerprints and Shannon indices) was not affected. The observed minute, but significant changes in the structure of the soil bacterial community might be caused by changes in the quality of rhizodeposits at elevated CO2. These could either result from altered rhizodeposition of individual plants or from altered species composition of the calcareous grassland.The 4th part of the thesis compiles data on soil microorganisms, soil fauna, soil structure and nitrogen cycle of calcareous grassland after CO2 exposure for six growing seasons. Microbial biomass, soil basal respiration and the metabolic quotient were not altered significantly. PLFA analysis revealed no significant shift in the ratio of fungi to bacteria. Protozoans, bacterivorous and fungivorous nematodes, acarians, collembolans, and root-feeding nematodes were not affected by elevated CO2. Total nematode numbers averaged slightly lower (-16%) and nematode mass was significantly reduced (by 43%) due to fewer large-diameter nematodes classified as omnivorous and predacious. CO2 exposure resulted in a shift towards smaller aggregate sizes; this was caused by higher soil moisture. Reduced aggregate sizes result in reduced pore neck diameters. This can confine the locomotion of large-diameter nematodes and possibly accounts for their decrease. The CO2 enrichment also affected the nitrogen cycle. N stocks in living plants and surface litter increased, but N in soil organic matter and microorganisms remained unaltered. N mineralisation increased considerably, but microbial N did not differ between treatments, indicating that net N immobilization rates were unaltered.